Locus 7196

Sequence ID	2L_DroMel_CAF1
Location	20,212,983 – 20,213,143
Length	160
Max. P	0.800025

overview

Window 9

Location	20,212,983 – 20,213,103
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.08
Mean single sequence MFE	-35.43
Consensus MFE	-29.74
Energy contribution	-28.54
Covariance contribution	-1.20
Combinations/Pair	1.14
Mean z-score	-1.40
Structure conservation index	0.84
SVM decision value	0.32
SVM RNA-class probability	0.686291
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20212983 120 + 22407834
UGCCGGCGGUGCAAUUCGCUCGUUGUUGGCACUUCCGACGGCUGCUGGGGUUAAUCUGCUUCAAUUAAGCUCAUUUAUUUGAAUUUAAUUGCUUUCCGCUCACCCCUCGACGGUUAAGAG
.((((((((......))))((((((((((.....))))))))....(((((..........((((((((.(((......))).))))))))..........)))))..))))))...... ( -33.95)
>DroSec_CAF1 54216 120 + 1
AGCCAGCGGUGCAAUUCGCUCGUUGUUGGCACUUCCAACGGCUGCUGGGGUUAAUCUGCUUCAAUUAAGCUCAUUUAUUUGAAUUUAAUUGCUUUCCGCUCACCCCUCGACGGUUAAGAG
(((((((((......))))).((((((((.....))))))))....(((((..........((((((((.(((......))).))))))))..........))))).....))))..... ( -33.55)
>DroSim_CAF1 31388 120 + 1
AGCCAGCGGUGCAAUUCGCUCGUUGUUGGCACUUCCGACGGCUGCUGGGGUUAAUCUGCUUCAAUUAAGCUCAUUUAUUUGAAUUUAAUUGCUUUCCGCUCACCCCUCGACGGUUAAGAG
(((((((((......))))).((((((((.....))))))))....(((((..........((((((((.(((......))).))))))))..........))))).....))))..... ( -33.25)
>DroEre_CAF1 9757 119 + 1
AGCCGGCGGUGCAAUUCGCUCGUUGUUGGCACUUCCGAUGGCUGCUGGGGUUAAUCUGCUUCAAUUAAGUUCAUUUAUUUGAAUUUAAUUGCUUUCCGCUCACACCUUGACG-GUUAAAG
(((((((((.((((...((..((..((((.....))))..)).))((((((......)))))).(((((((((......)))))))))))))...))))(((.....)))))-))).... ( -36.40)
>DroYak_CAF1 7424 120 + 1
AGCCAGCGGUGCAAUUCGCUCGUUGUUGGCACUUCCGGCGGCUGCUGGGGUUAAUCUGCUUCAAUUAAGUUCAUUUAUUUGAAUUUAAUUGCUUUCCGCUUACUCCUUGGCGGGUUAAAG
.((((((((.((.....))...))))))))..(((((((....)))))))((((((((((..(((((((((((......)))))))))))((.....)).........)))))))))).. ( -40.00)
>consensus
AGCCAGCGGUGCAAUUCGCUCGUUGUUGGCACUUCCGACGGCUGCUGGGGUUAAUCUGCUUCAAUUAAGCUCAUUUAUUUGAAUUUAAUUGCUUUCCGCUCACCCCUCGACGGUUAAGAG
....(((((.((((...((..((((((((.....)))))))).))((((((......)))))).(((((.(((......))).)))))))))...))))).....(((.........))) (-29.74 = -28.54 +  -1.20)

alignment

secondary structure

dotplot

Window 0

Location	20,213,023 – 20,213,143
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.08
Mean single sequence MFE	-31.35
Consensus MFE	-25.58
Energy contribution	-25.32
Covariance contribution	-0.25
Combinations/Pair	1.13
Mean z-score	-1.91
Structure conservation index	0.82
SVM decision value	0.61
SVM RNA-class probability	0.800025
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20213023 120 + 22407834
GCUGCUGGGGUUAAUCUGCUUCAAUUAAGCUCAUUUAUUUGAAUUUAAUUGCUUUCCGCUCACCCCUCGACGGUUAAGAGGCCCCAUAACGCAGCGACUUCCUUUCGAUUUACCAGAGUU
((((((((((((.........((((((((.(((......))).))))))))(((.(((.((.......)))))..))).)))))))....)))))......................... ( -30.70)
>DroSec_CAF1 54256 120 + 1
GCUGCUGGGGUUAAUCUGCUUCAAUUAAGCUCAUUUAUUUGAAUUUAAUUGCUUUCCGCUCACCCCUCGACGGUUAAGAGGCCCCAUAACGCAGCGACUUCCUUUCGAUUUACCAGAGUU
((((((((((((.........((((((((.(((......))).))))))))(((.(((.((.......)))))..))).)))))))....)))))......................... ( -30.70)
>DroSim_CAF1 31428 120 + 1
GCUGCUGGGGUUAAUCUGCUUCAAUUAAGCUCAUUUAUUUGAAUUUAAUUGCUUUCCGCUCACCCCUCGACGGUUAAGAGGCCCCAUAACGCAGCGACUUCCUUUCGAUUUACCAGAGUU
((((((((((((.........((((((((.(((......))).))))))))(((.(((.((.......)))))..))).)))))))....)))))......................... ( -30.70)
>DroYak_CAF1 7464 116 + 1
GCUGCUGGGGUUAAUCUGCUUCAAUUAAGUUCAUUUAUUUGAAUUUAAUUGCUUUCCGCUUACUCCUUGGCGGGUUAAAGGACCCAUAACGCACUGACUUCCCUUCGCUUC----GGGUU
((.((..(((.......((..((((((((((((......))))))))))))......)).....)))..))(((((....))))).....))........(((........----))).. ( -33.30)
>consensus
GCUGCUGGGGUUAAUCUGCUUCAAUUAAGCUCAUUUAUUUGAAUUUAAUUGCUUUCCGCUCACCCCUCGACGGUUAAGAGGCCCCAUAACGCAGCGACUUCCUUUCGAUUUACCAGAGUU
(((((((((((..........((((((((.(((......))).))))))))(((((((.((.......)))))...))))))))))....)))))......................... (-25.58 = -25.32 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:49 2006